Hi 👋
I'm an image analysis engineer working as part of the EPFL Center for Imaging in Lausanne, Switzerland 🇨🇭.
Important
Help me build Awesome Scientific Image Analysis - A curated list of scientific image analysis resources and software tools!
You're going to like this if you are into scientific image analysis:
| 🪐 Imaging Server Kit A toolkit for integrating image analysis algorithms in Napari and QuPath using FastAPI. |
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Interactive notebooks I've developed for workshops:
- Introduction to Python for Image Analysis - Notebook running in the browser with JupyterLite.
- Introduction to Machine Learning for Vision - Workshop designed as a live Marimo notebook.
- Object Detection with YOLO - Hands-on Computer Vision on USB microscopes.
- Fine-Tuning Models with the
transformersLibrary - Introduction to computer vision with HuggingFace libraries. - Segmentation Challenge - Practice your segmentation skills.
More projects
- FeatureScope - Plot image features interactively.
- QuPath Yolo Toolbox - Train and use YOLO models in QuPath.
- napari-orientationpy - Grayscale orientation analysis in Napari.
- The Image Analysis Field Guide - Essential toolkit to get started in scientific image analysis (Jupyter Book).
- JupyterHub Imaging - A JupyterHub bundled with image analysis tools.
- Setting up Python for scientific image analysis - Short guide.
- Image data visualization with Python and Napari - 2023 Workshop.
- nD Image Visualization with Open-Source Tools - 2025 Workshop.
- Napari Lazy Image Browser - Interactively browse Zarr images in Napari.
- napari-magic-wand - "Magic" tracing tool for Napari.
- Spheriscope - Visualize image datasets on a spherical latent space.
- opiniondevelopment.org - Create notebooks to educate yourself on the issues that matter to you (Django app).
- mallorywittwer.github.io - Personal website with three.js animations.
- Crystal orientation visualizer - React.js app.
- Iron-Carbon phase diagram - React.js app.
- University ranking map - React.js app.